SRX3171432
ChIP-seq of H3K4me3 in Homo sapiens: adult FSHD4 MB

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
No description
Antigen
NA

Cell type

Cell type Class
Muscle
Cell type
Skeletal muscle
NA
NA

Attributes by original data submitter

Sample

isolate
Quadriceps muscle biopses
age
52
biomaterial_provider
Fields Center for FSHD of the Rochester Medical Center Dept. of Neurology, New York, USA
sex
male
tissue
Skeletal Muscle
dev_stage
Adult
disease
Facioscapulohumeral Dystrophy
sample_type
H3K4me3 of FSHD sample 4 proliferating myoblasts
treatment
Cycling cells cultured in in F10 Nutrient Mixture 20 % fetal bovine serum, 2 mM L-glutamine, 10 ng/ml hFGF, 0.4 mg/ml dexamethasone

Sequenced DNA Library

library_name
FSHD4 MB_H3K4me3
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP

Sequencing Platform

instrument_model
Illumina HiSeq 2000

Where can I get the processing logs?

Read processing pipeline log

hg38

Number of total reads
14437600
Reads aligned (%)
97.2
Duplicates removed (%)
1.4
Number of peaks
7236 (qval < 1E-05)

hg19

Number of total reads
14437600
Reads aligned (%)
96.2
Duplicates removed (%)
1.5
Number of peaks
7013 (qval < 1E-05)

Base call quality data from DBCLS SRA